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Overview of My Research

Overview of My Research. Brendan Mumey Department of Computer Science MSU. Interest: Algorithms. In Computational Biology… Epitope mapping In Networking… Optical networking (NSF supported) Wireless networking. Background: Antibody Imprinting .

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Overview of My Research

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  1. Overview of My Research Brendan Mumey Department of Computer Science MSU

  2. Interest: Algorithms • In Computational Biology… • Epitope mapping • In Networking… • Optical networking (NSF supported) • Wireless networking

  3. Background: Antibody Imprinting • Step 1: Find an antibody that binds the protein: Step 2: Probe the antibody with a random peptide library of short peptide sequences: protein target antibody probes antibody

  4. 15% 85% Validation case: Antibody 9D7 epitope on IL-10

  5. The grey squares are the alignment of a random set of peptides • The gold triangles are the genuine epitope • The large yellow triangles are key residues mediating binding of antibody to antigen

  6. Current Work • Improving algorithm to do multiple alignments • Refining substitution matrix based on PDB data

  7. Optical Networking NSF Optical Network

  8. Routing and Wavelength Assignment

  9. Markov based RWA results

  10. Current Work • Extending some ideas from Multicommodity Flow for improved algorithms • New software simulation system (RAPTOR) for testing RWA algorithms with physical impairments modeled

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